Identification of novel viruses using VirusHunter--an automated data analysis pipeline.
Quick and accurate identification of microbial pathogens is essential for both diagnosis and response to emerging infectious diseases. The advent of next-generation sequencing technology offers an unprecedented platform for rapid sequencing-based identification of novel viruses. We have developed a...
Main Authors: | , , , , , , , , , |
---|---|
Format: | Article |
Language: | English |
Published: |
Public Library of Science (PLoS)
2013-01-01
|
Series: | PLoS ONE |
Online Access: | http://europepmc.org/articles/PMC3805514?pdf=render |
id |
doaj-6ace77934d7e4fed9a4f51c776eb0d15 |
---|---|
record_format |
Article |
spelling |
doaj-6ace77934d7e4fed9a4f51c776eb0d152020-11-25T01:02:46ZengPublic Library of Science (PLoS)PLoS ONE1932-62032013-01-01810e7847010.1371/journal.pone.0078470Identification of novel viruses using VirusHunter--an automated data analysis pipeline.Guoyan ZhaoSiddharth KrishnamurthyZhengqiu CaiVsevolod L PopovAmelia P Travassos da RosaHilda GuzmanSong CaoHerbert W VirginRobert B TeshDavid WangQuick and accurate identification of microbial pathogens is essential for both diagnosis and response to emerging infectious diseases. The advent of next-generation sequencing technology offers an unprecedented platform for rapid sequencing-based identification of novel viruses. We have developed a customized bioinformatics data analysis pipeline, VirusHunter, for the analysis of Roche/454 and other long read Next generation sequencing platform data. To illustrate the utility of VirusHunter, we performed Roche/454 GS FLX titanium sequencing on two unclassified virus isolates from the World Reference Center for Emerging Viruses and Arboviruses (WRCEVA). VirusHunter identified sequences derived from a novel bunyavirus and a novel reovirus in the two samples respectively. Further sequence analysis demonstrated that the viruses were novel members of the Phlebovirus and Orbivirus genera. Both Phlebovirus and Orbivirus genera include many economic important viruses or serious human pathogens.http://europepmc.org/articles/PMC3805514?pdf=render |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Guoyan Zhao Siddharth Krishnamurthy Zhengqiu Cai Vsevolod L Popov Amelia P Travassos da Rosa Hilda Guzman Song Cao Herbert W Virgin Robert B Tesh David Wang |
spellingShingle |
Guoyan Zhao Siddharth Krishnamurthy Zhengqiu Cai Vsevolod L Popov Amelia P Travassos da Rosa Hilda Guzman Song Cao Herbert W Virgin Robert B Tesh David Wang Identification of novel viruses using VirusHunter--an automated data analysis pipeline. PLoS ONE |
author_facet |
Guoyan Zhao Siddharth Krishnamurthy Zhengqiu Cai Vsevolod L Popov Amelia P Travassos da Rosa Hilda Guzman Song Cao Herbert W Virgin Robert B Tesh David Wang |
author_sort |
Guoyan Zhao |
title |
Identification of novel viruses using VirusHunter--an automated data analysis pipeline. |
title_short |
Identification of novel viruses using VirusHunter--an automated data analysis pipeline. |
title_full |
Identification of novel viruses using VirusHunter--an automated data analysis pipeline. |
title_fullStr |
Identification of novel viruses using VirusHunter--an automated data analysis pipeline. |
title_full_unstemmed |
Identification of novel viruses using VirusHunter--an automated data analysis pipeline. |
title_sort |
identification of novel viruses using virushunter--an automated data analysis pipeline. |
publisher |
Public Library of Science (PLoS) |
series |
PLoS ONE |
issn |
1932-6203 |
publishDate |
2013-01-01 |
description |
Quick and accurate identification of microbial pathogens is essential for both diagnosis and response to emerging infectious diseases. The advent of next-generation sequencing technology offers an unprecedented platform for rapid sequencing-based identification of novel viruses. We have developed a customized bioinformatics data analysis pipeline, VirusHunter, for the analysis of Roche/454 and other long read Next generation sequencing platform data. To illustrate the utility of VirusHunter, we performed Roche/454 GS FLX titanium sequencing on two unclassified virus isolates from the World Reference Center for Emerging Viruses and Arboviruses (WRCEVA). VirusHunter identified sequences derived from a novel bunyavirus and a novel reovirus in the two samples respectively. Further sequence analysis demonstrated that the viruses were novel members of the Phlebovirus and Orbivirus genera. Both Phlebovirus and Orbivirus genera include many economic important viruses or serious human pathogens. |
url |
http://europepmc.org/articles/PMC3805514?pdf=render |
work_keys_str_mv |
AT guoyanzhao identificationofnovelvirusesusingvirushunteranautomateddataanalysispipeline AT siddharthkrishnamurthy identificationofnovelvirusesusingvirushunteranautomateddataanalysispipeline AT zhengqiucai identificationofnovelvirusesusingvirushunteranautomateddataanalysispipeline AT vsevolodlpopov identificationofnovelvirusesusingvirushunteranautomateddataanalysispipeline AT ameliaptravassosdarosa identificationofnovelvirusesusingvirushunteranautomateddataanalysispipeline AT hildaguzman identificationofnovelvirusesusingvirushunteranautomateddataanalysispipeline AT songcao identificationofnovelvirusesusingvirushunteranautomateddataanalysispipeline AT herbertwvirgin identificationofnovelvirusesusingvirushunteranautomateddataanalysispipeline AT robertbtesh identificationofnovelvirusesusingvirushunteranautomateddataanalysispipeline AT davidwang identificationofnovelvirusesusingvirushunteranautomateddataanalysispipeline |
_version_ |
1725203694510669824 |